Phylogenomic Comparison of Seven African Swine Fever Genotype II Outbreak Viruses (1998–2019) Reveals the Likely African Origin of Georgia 2007/1
Abstract
:1. Introduction
2. Material and Methods
2.1. Sample Collection
2.2. Sample Preparation for NGS
2.3. NGS and Data Analysis
2.4. Phylogenetic Analyses
2.5. Confirmation of a 550 bp Deletion Using PCR-Sanger Sequencing
3. Results
3.1. Phylogenomic Comparison of ASFVs
3.2. Individual Gene Phylogenies and SNP Detection
4. Discussion
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Isolate Name | Country of Origin | Year Isolated | Host Species | p72 Genotype | GenBank Accession Number |
---|---|---|---|---|---|
MAD/01/1998 | Madagascar | 1998 | Domestic pig | II | OP781309 |
MOZ/01/2005 | Mozambique | 2005 | Domestic pig | II | OP781313 |
MAU/01/2007 | Mauritius | 2007 | Domestic pig | II | OP781308 |
MAL/04/2011 | Malawi | 2011 | Domestic pig | II | OP781310 |
ZIM/2015 | Zimbabwe | 2015 | Domestic pig | II | OP781311 |
RSA/08/2019 | South Africa | 2019 | Domestic pig | II | OP781312 |
TAN/01/2011 | Tanzania | 2011 | Domestic pig | II | OQ434234 |
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Mthombeni, R.F.; Bastos, A.D.; van Schalkwyk, A.; van Emmenes, J.; Heath, L. Phylogenomic Comparison of Seven African Swine Fever Genotype II Outbreak Viruses (1998–2019) Reveals the Likely African Origin of Georgia 2007/1. Pathogens 2023, 12, 1129. https://doi.org/10.3390/pathogens12091129
Mthombeni RF, Bastos AD, van Schalkwyk A, van Emmenes J, Heath L. Phylogenomic Comparison of Seven African Swine Fever Genotype II Outbreak Viruses (1998–2019) Reveals the Likely African Origin of Georgia 2007/1. Pathogens. 2023; 12(9):1129. https://doi.org/10.3390/pathogens12091129
Chicago/Turabian StyleMthombeni, Rivalani F., Armanda D. Bastos, Antoinette van Schalkwyk, Juanita van Emmenes, and Livio Heath. 2023. "Phylogenomic Comparison of Seven African Swine Fever Genotype II Outbreak Viruses (1998–2019) Reveals the Likely African Origin of Georgia 2007/1" Pathogens 12, no. 9: 1129. https://doi.org/10.3390/pathogens12091129